When trying to perform biexponential transformation to fluorescence channels in a flowFrame, per Finak et al. BMC Bioinformatics 2010, 11:546, I receive this error:
Error in .Call("flowCore_biexponential_transform", x, a = a, b = b, c = c, : "flowCore_biexponential_transform" not available for .Call() for package "flowCore"
I see that this error was also reported approximately three years ago ( https://support.bioconductor.org/p/88362/ ) and that a follow-on issue was not fully resolved. I just uninstalled and reinstalled R and all the packages I am using to see if this would help. No change.
My questions are -
the original partial fix was to use devtools and install what I take to be modified source on github... but, I am not very computer savvy - I think this will be rabbit hole for me. Is there another way to install the fixed code that is accessible to me, and, if not, what's up (problem was reported ~3 years ago, seems like fix should be in most recent version)?
after the person who originally reported this problem used devtools and the source on github, there was a follow-on problem - was this ever fixed/sorted? I assume I may need the fix to the follow-on as well. Follow-on error was -
Error in optim(par = p.ab, mclMultivBiexpAB, y = y, c = p.cd, d = p.cd, : L-BFGS-B needs finite values of 'fn
Session info is
R version 3.6.0 (2019-04-26) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 7 x64 (build 7601) Service Pack 1 Matrix products: default locale:  LC_COLLATE=English_New Zealand.1252 LC_CTYPE=English_New Zealand.1252  LC_MONETARY=English_New Zealand.1252 LC_NUMERIC=C  LC_TIME=English_New Zealand.1252 attached base packages:  stats graphics grDevices utils datasets methods base other attached packages:  flowTrans_1.36.0 flowClust_3.22.0 rmarkdown_1.13 xtable_1.8-4 knitr_1.23  shinyBS_0.61 drsmooth_1.9.0 shiny_1.3.2 flowAI_1.14.0 cluster_2.0.9  fpc_2.2-2 factoextra_1.0.5 ggplot2_3.1.1 flowViz_1.48.0 lattice_0.20-38  flowCore_1.50.0 loaded via a namespace (and not attached):  Biobase_2.44.0 ellipse_0.4.1 assertthat_0.2.1 BiocManager_1.30.4  stats4_3.6.0 latticeExtra_0.6-28 robustbase_0.93-5 ggrepel_0.8.1  pillar_1.4.1 glue_1.3.1 digest_0.6.19 RColorBrewer_1.1-2  promises_1.0.1 colorspace_1.4-1 htmltools_0.3.6 httpuv_1.5.1  plyr_1.8.4 pcaPP_1.9-73 pkgconfig_2.0.2 purrr_0.3.2  corpcor_1.6.9 mvtnorm_1.0-10 scales_1.0.0 later_0.8.0  tibble_2.1.3 withr_2.1.2 nnet_7.3-12 BiocGenerics_0.30.0  hexbin_1.27.3 lazyeval_0.2.2 mnormt_1.5-5 magrittr_1.5  crayon_1.3.4 IDPmisc_1.1.19 mime_0.6 mclust_5.4.3  evaluate_0.14 MASS_7.3-51.4 changepoint_2.2.2 class_7.3-15  graph_1.62.0 tools_3.6.0 matrixStats_0.54.0 stringr_1.4.0  kernlab_0.9-27 munsell_0.5.0 compiler_3.6.0 rlang_0.3.4  grid_3.6.0 gtable_0.3.0 flexmix_2.3-15 reshape2_1.4.3  rrcov_1.4-7 R6_2.4.0 zoo_1.8-6 prabclus_2.3-1  dplyr_0.8.1 clue_0.3-57 KernSmooth_2.23-15 modeltools_0.2-22  stringi_1.4.3 parallel_3.6.0 Rcpp_1.0.1 DEoptimR_1.0-8  tidyselect_0.2.5 xfun_0.7 diptest_0.75-7